Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   RJ643_RS03890 Genome accession   NZ_CP134389
Coordinates   804190..805683 (+) Length   497 a.a.
NCBI ID   WP_001530857.1    Uniprot ID   -
Organism   Escherichia coli strain TUM10828     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 799190..810683
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RJ643_RS03870 (RJ643_03870) pilD 799838..800647 (+) 810 WP_000895875.1 prepilin peptidase PppA Machinery gene
  RJ643_RS03875 (RJ643_03875) gspS2 800713..801123 (+) 411 WP_001298257.1 type II secretion system pilot lipoprotein GspS-beta -
  RJ643_RS03880 (RJ643_03880) gspC 801141..802100 (+) 960 WP_061157986.1 type II secretion system protein GspC -
  RJ643_RS03885 (RJ643_03885) gspD 802130..804190 (+) 2061 WP_001314154.1 type II secretion system secretin GspD -
  RJ643_RS03890 (RJ643_03890) pilB/pilB1 804190..805683 (+) 1494 WP_001530857.1 type II secretion system ATPase GspE Machinery gene
  RJ643_RS03895 (RJ643_03895) gspF 805683..806906 (+) 1224 WP_061157985.1 type II secretion system inner membrane protein GspF -
  RJ643_RS03900 (RJ643_03900) gspG 806923..807378 (+) 456 WP_001087289.1 type II secretion system major pseudopilin GspG -
  RJ643_RS03905 (RJ643_03905) gspH 807382..807945 (+) 564 WP_061157984.1 type II secretion system minor pseudopilin GspH -
  RJ643_RS03910 (RJ643_03910) gspI 807942..808313 (+) 372 WP_000820077.1 type II secretion system minor pseudopilin GspI -
  RJ643_RS03915 (RJ643_03915) gspJ 808310..808915 (+) 606 WP_001350472.1 type II secretion system minor pseudopilin GspJ -
  RJ643_RS03920 (RJ643_03920) gspK 808912..809889 (+) 978 WP_000633183.1 type II secretion system minor pseudopilin GspK -

Sequence

Protein


Download         Length: 497 a.a.        Molecular weight: 55180.33 Da        Isoelectric Point: 5.9081

>NTDB_id=803399 RJ643_RS03890 WP_001530857.1 804190..805683(+) (pilB/pilB1) [Escherichia coli strain TUM10828]
MVPVAQETTANTVRLPYSFSRRFSLVAWCEASLEILHVHPLSLSVLQELQRGLNAPFTLRQIDEAEFEQRLNAVWQRDSS
EARQLMEDLGSAEDFFTLAEELPETEDLLESDDDAPIIKLINAMLAEAIKEGASDIHIETFEKSLVIRFRVDGTLHEMLR
PGRKLASLLVSRIKVMARLDIAEKRVPQDGRIALLLGGRAIDVRVSTMPSAWGERVVLRLLDKNQARLTLERLGLSLELT
AQLRQLLHKPHGIFLVTGPTGSGKSTTLYAGLQELNNHSRNILTVEDPIEYMIEGIGQTQVNTRVGMTFARGLRAILRQD
PDVVMVGEIRDTETAEIAVQASLTGHLVLSTLHTNTAVGAITRLQDMGVEPFLLSSSLTGVMAQRLVRTLCPDCRQSAPA
TDEEKRLLGITDARTVTLYHPQGCPACNHKGFRGRTAIHELIVVDATLRDLIHRQAGELELERYVRQHSAGIRSNGIEKV
LAGETSLDEVLRVTMEA

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=803399 RJ643_RS03890 WP_001530857.1 804190..805683(+) (pilB/pilB1) [Escherichia coli strain TUM10828]
ATGGTGCCTGTAGCACAGGAAACCACCGCTAACACCGTGCGTCTGCCCTACAGTTTCAGCCGTCGGTTTAGCCTGGTGGC
ATGGTGCGAAGCGTCGCTGGAGATCCTCCATGTTCATCCGTTGTCGCTCTCTGTTTTACAGGAGCTACAGCGGGGGCTGA
ACGCGCCTTTTACGCTGCGGCAAATCGACGAGGCCGAATTTGAACAGCGGCTGAATGCGGTCTGGCAGCGGGACTCTTCC
GAAGCTCGCCAGCTGATGGAAGATCTCGGTTCCGCCGAGGACTTTTTTACCCTCGCTGAAGAACTGCCGGAAACGGAAGA
TCTGCTGGAAAGTGACGACGATGCGCCGATCATCAAACTGATCAACGCCATGCTGGCAGAGGCAATCAAAGAAGGCGCTT
CGGATATCCACATTGAGACGTTTGAAAAGAGTCTGGTGATCCGTTTTCGTGTTGACGGCACATTACATGAAATGTTGCGC
CCCGGTCGTAAACTGGCCTCGCTGCTGGTCTCGCGTATCAAGGTGATGGCGCGACTGGATATCGCCGAAAAGCGCGTACC
GCAGGATGGCCGTATTGCGCTGCTGCTGGGCGGTCGGGCGATTGACGTCCGTGTATCAACCATGCCTTCCGCCTGGGGGG
AACGGGTGGTGCTGCGACTGCTGGACAAAAACCAGGCTCGCCTGACGCTGGAGCGTCTGGGTTTAAGTCTCGAACTGACT
GCGCAGTTGCGCCAGCTGTTACACAAACCGCACGGCATTTTTCTGGTGACGGGGCCGACCGGTTCCGGCAAAAGCACCAC
GCTGTACGCTGGATTGCAGGAGCTGAACAACCACTCGCGTAACATTCTCACGGTTGAAGACCCTATCGAATACATGATTG
AAGGGATCGGTCAGACGCAGGTTAACACCCGCGTCGGCATGACATTCGCCCGTGGCCTGCGCGCGATTTTGCGTCAGGAC
CCGGATGTGGTGATGGTCGGTGAAATCCGCGATACCGAAACCGCAGAAATCGCTGTTCAGGCTTCACTGACCGGACACCT
GGTCCTTTCCACGCTGCATACCAACACGGCGGTGGGGGCGATCACACGTTTGCAGGATATGGGCGTGGAGCCTTTCCTGC
TCTCTTCCAGTCTGACGGGCGTGATGGCGCAGCGACTGGTTCGCACGCTGTGTCCCGATTGCCGCCAGTCCGCGCCTGCC
ACCGACGAAGAAAAACGCCTGCTGGGGATTACCGATGCGCGAACCGTCACGCTGTACCATCCGCAGGGTTGTCCCGCCTG
TAATCATAAAGGTTTTCGCGGACGTACTGCCATCCATGAGCTGATCGTGGTGGACGCCACATTGCGTGATTTGATCCACC
GTCAGGCCGGGGAACTGGAGCTGGAACGTTATGTCCGGCAACACTCTGCGGGTATCCGCAGCAACGGCATTGAGAAAGTG
CTCGCCGGAGAAACCTCTCTCGATGAAGTTCTGCGGGTAACCATGGAGGCGTAA

Domains

Predicted by InterProScan.

Type II/IV secretion system protein (T2SSE)

(123-389)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  pilB/pilB1 Synechocystis sp. PCC 6803

39.556

100

0.431
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

47.529

85.513

0.406
  pilB Vibrio parahaemolyticus RIMD 2210633

48.111

79.879

0.384
  pilB Legionella pneumophila strain ERS1305867

43.619

86.72

0.378
  pilB Vibrio campbellii strain DS40M4

47.222

79.678

0.376
  pilB Acinetobacter baumannii D1279779

46.366

80.282

0.372
  pilB Vibrio cholerae strain A1552

45.96

79.678

0.366
  pilB Acinetobacter baylyi ADP1

46.41

78.471

0.364
  pilF Thermus thermophilus HB27

45

80.483

0.362